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When I go to the RAM preview of After Effects, the audio of the video will play on sync for a while, then will get screwy. Sometimes the audio will jump ahead or before it should. It is making the sound choppy and my characters sound stupid.

Great answer! But how do I select Waveform Audio File? I only see MP3.
–
parionMay 26 '12 at 20:43

I always forget which codecs are default and which I installed myself. To be able to export WAV (Waveform Audio Files) you will need Flip4Mac. But you dont have to use WAV. You could just export it as a MP3 which would work just a well
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OrangeBoxMay 28 '12 at 1:03